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xpa xeroderma pigmentosum, complementation group A [ Danio rerio (zebrafish) ]

Gene ID: 393443, updated on 27-Mar-2024

Summary

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Official Symbol
xpaprovided by ZNC
Official Full Name
xeroderma pigmentosum, complementation group Aprovided by ZNC
Primary source
ZFIN:ZDB-GENE-040426-1205
See related
Ensembl:ENSDARG00000038114 AllianceGenome:ZFIN:ZDB-GENE-040426-1205
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
zgc:63640
Summary
Predicted to enable damaged DNA binding activity. Predicted to be involved in DNA repair. Predicted to act upstream of or within nucleotide-excision repair. Predicted to be located in nucleus. Predicted to be part of nucleotide-excision repair factor 1 complex. Is expressed in liver. Human ortholog(s) of this gene implicated in xeroderma pigmentosum and xeroderma pigmentosum group A. Orthologous to human XPA (XPA, DNA damage recognition and repair factor). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 1
Exon count:
9
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (12068725..12097812)
105 previous assembly GRCz10 (GCF_000002035.5) 1 NC_007112.6 (11381600..11411012)

Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene phospholipase A2, group XIIA Neighboring gene uncharacterized LOC110439783 Neighboring gene microsomal triglyceride transfer protein Neighboring gene serine peptidase inhibitor, Kazal type 4

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Activation of the nucleotide excision repair pathway by crude oil exposure: A translational study from model organisms to the Hebei Spirit Oil Spill Cohort. Kim Y, et al. Environ Pollut, 2019 Nov. PMID 31454576
  2. Impact of environmental estrogens on nucleotide excision repair gene expression in embryonic zebrafish. Notch EG, et al. Comp Biochem Physiol C Toxicol Pharmacol, 2013 May. PMID 23506788
  3. Cadmium sulfate and CdTe-quantum dots alter DNA repair in zebrafish (Danio rerio) liver cells. Tang S, et al. Toxicol Appl Pharmacol, 2013 Oct 15. PMID 23770381
  4. Wastewater treatment effluent alters nucleotide excision repair in zebrafish (Danio rerio). Notch EG, et al. Comp Biochem Physiol C Toxicol Pharmacol, 2009 Aug. PMID 19467346
  5. 17alpha-Ethinylestradiol hinders nucleotide excision repair in zebrafish liver cells. Notch EG, et al. Aquat Toxicol, 2009 Dec 13. PMID 19237207

See all (13) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC63640

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables damaged DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables damaged DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within DNA damage response IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within DNA repair IEA
Inferred from Electronic Annotation
more info
  
involved_in UV-damage excision repair IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in base-excision repair IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within nucleotide-excision repair IEA
Inferred from Electronic Annotation
more info
  
involved_in nucleotide-excision repair involved in interstrand cross-link repair IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in nucleotide-excision repair, DNA damage recognition IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
part_of nucleotide-excision repair factor 1 complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
DNA repair protein complementing XP-A cells

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_200471.1 → NP_956765.1  DNA repair protein complementing XP-A cells

    See identical proteins and their annotated locations for NP_956765.1

    Status: PROVISIONAL

    Source sequence(s)
    BC055179
    UniProtKB/TrEMBL
    Q7SY02
    Related
    ENSDARP00000055565.5, ENSDART00000055566.6
    Conserved Domains (4) summary
    TIGR00598
    Location:107 → 265
    rad14; DNA repair protein
    pfam01286
    Location:107 → 135
    XPA_N; XPA protein N-terminal
    pfam05181
    Location:137 → 188
    XPA_C; XPA protein C-terminus
    pfam15232
    Location:401 → 467
    DUF4585; Domain of unknown function (DUF4585)

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007112.7 Reference GRCz11 Primary Assembly

    Range
    12068725..12097812
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_009306424.3 → XP_009304699.1  DNA repair protein complementing XP-A cells isoform X2

    UniProtKB/TrEMBL
    A0A8M3BDZ6
    Conserved Domains (3) summary
    TIGR00598
    Location:106 → 276
    rad14; DNA repair protein
    pfam01286
    Location:106 → 134
    XPA_N; XPA protein N-terminal
    pfam05181
    Location:136 → 187
    XPA_C; XPA protein C-terminus

  2. XM_005159814.4 → XP_005159871.1  DNA repair protein complementing XP-A cells isoform X1

    See identical proteins and their annotated locations for XP_005159871.1

    UniProtKB/TrEMBL
    A0A8M3AY35
    Conserved Domains (3) summary
    TIGR00598
    Location:107 → 277
    rad14; DNA repair protein
    pfam01286
    Location:107 → 135
    XPA_N; XPA protein N-terminal
    pfam05181
    Location:137 → 188
    XPA_C; XPA protein C-terminus

  3. XM_009306421.3 → XP_009304696.1  DNA repair protein complementing XP-A cells isoform X1

    See identical proteins and their annotated locations for XP_009304696.1

    UniProtKB/TrEMBL
    A0A8M3AY35
    Conserved Domains (3) summary
    TIGR00598
    Location:107 → 277
    rad14; DNA repair protein
    pfam01286
    Location:107 → 135
    XPA_N; XPA protein N-terminal
    pfam05181
    Location:137 → 188
    XPA_C; XPA protein C-terminus
Nucleotide Protein
Heading Accession and Version

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